Merk: Dette er en forel?pig oversikt. Det vil nok bli endringer.
B?ker
Ingvar Eidhammer, Inge Jonassen and William R. Taylor: Protein Bioinformatics: An Algorithmic Approach to Sequence and Structure Analysis, 2004. Wiley. ISBN:?0-470-84839-1. Kapittel 1-8. Bokas hjemmeside (inkl. errata).
Ytterligere errata til boken over.
Artikler
Altschul SF, Madden TL, Sch?ffer A, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, 1997. Nucleic Acids Research, volum 25, side 3389-3402. Fulltekst.
Eddy S: What is dynamic programming?, 2004. Nature Biotechnology, 22, 909-911. Fulltekst.
Eddy S: Where did the BLOSUM62 alignment score matrix come from?, 2004. Nature Biotechnology, 22, 1035-1036. Fulltekst.
Eddy S: What is a hidden Markov model?, 2004. Nature Biotechnology, 22, 1315-1316. Fulltekst.
Eddy S: How do RNA folding algorithms work?, 2004. Nature Biotechnology, 22, 1457-1458. Fulltekst.
Edgar RC: MUSCLE: multiple sequence alignment with high accuracy and high throughput, 2004. Nucleic Acids Res., 32, 1792-1797. Fulltekst.
Henikoff S, Henikoff JG: Amino acid substitution matrices from protein blocks, 1992. Proc. Natl. Acad. Sci. USA, 89, 10915-10919. Fulltekst.
Myers EW and Miller W: Optimal alignments in linear space, 1988. CABIOS, 4, 11-17. Abstract. Fulltekst.
Ning Z, Cox AJ, Mullikin JC: SSAHA: a fast search method for large DNA databases, 2001. Genome Research, 11, 1725-1729. Fulltekst.
Notredame C, Higgins DG, Heringa J: T-Coffee: A novel method for fast and accurate multiple sequence alignment, 2000. J Mol Biol., 302, 205-17. Fulltekst.
Thompson JD, Higgins DG, Gibson TJ: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, 1994. Nucleic Acids Res. 22, 4673-4680. Fulltekst.
Zhang MQ: Computational prediction of eukaryotic protein-coding genes, 2002. Nature Reviews Genetics, 3, 698-710. Fulltekst.
Forelesninger
Torbj?rn Rognes: Forelesningspresentasjoner INF5340, 2006. Tilgjengelig p? Classfronter.
?vinger
?vingsoppgavene.
Den obligatoriske oppgaven. Fulltekst.